The Sub Total is the result of the following calculation. For more information please click on "Readme" in the top left of the report.
This test checks if any annotations at all are present in the SBML annotations field for each metabolite, irrespective of the type of annotation i.e. specific database cross-references, ontology terms, additional information. For this test to pass the model is expected to have metabolites and each of them should have some form of annotation. Implementation: Check if the annotation attribute of each cobra.Metabolite object of the model is unset or empty.
A total of 539 metabolites (95.91%) lack any form of annotation: o2_e, pydx_e, pro__L_e, hco3_e, lac__D_e, ...
The Sub Total is the result of the following calculation. For more information please click on "Readme" in the top left of the report.
The Sub Total is the result of the following calculation. For more information please click on "Readme" in the top left of the report.
The Sub Total is the result of the following calculation. For more information please click on "Readme" in the top left of the report.
The Sub Total is the result of the following calculation. For more information please click on "Readme" in the top left of the report.
The Total Score is the result of the following calculation. For more information please click on "Readme" in the top left of the report.
This test reports if the model file is represented in the latest edition (level) of the Systems Biology Markup Language (SBML) which is Level 3, and at least version 1. Implementation: The level and version are parsed directly from the SBML document.
The Flux Balance Constraints (FBC) Package extends SBML with structured and semantic descriptions for domain-specific model components such as flux bounds, multiple linear objective functions, gene-protein-reaction associations, metabolite chemical formulas, charge and related annotations which are relevant for parameterized GEMs and FBA models. The SBML and constraint-based modeling communities collaboratively develop this package and update it based on user input. Implementation: Parse the state of the FBC plugin from the SBML document.
Stoichiometrically Balanced Cycles are artifacts of insufficiently constrained networks resulting in reactions that can carry flux when all the boundaries have been closed. Implementation: Close all model boundary reactions and then use flux variability analysis (FVA) to identify reactions that carry flux.
There are 9 (1.46%) reactions which participate in SBC in the model: SUCD1, GALUi, PGIA, PGI, G6PI, ...